Question: using simmap on a set of trees (phytools)
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gravatar for asalak66
9 months ago by
asalak660
asalak660 wrote:

ancestral reconstruction for discrete trait:
I have a list of trees. I am trying to map trait on these trees and summarize them on a consensus tree. I am using "make.simmap" in phytools pakage. I am trying to analyze step by step from this link "http://blog.phytools.org/2013/04/using-makesimmap-on-set-of-trees.html". Unfortunately I have an error and could not to debug it. please help me! this is my command and error:

first load packages

require(phytools) trees<-read.nexus("D:\project\PhD\fullrun1.nex") trees trees<-sample(trees[8751:35001],5) trees

readdata

x<-read.csv("D:\project\PhD\fullrun1.csv") mtrees<-make.simmap(trees,x,nsim=10,message=FALSE)

Error in [.data.frame(x, order(x, na.last = na.last, decreasing = decreasing)) : undefined columns selected

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ADD COMMENTlink written 9 months ago by asalak660
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